Mbalducc Week 6
From LMU BioDB 2017
Contents
Discovery Questions Responses
- Here is the graph I created of two genes, DIT1 and SPS100 and their transcription rates over time.
- Gene X: 1 hour: Black, 3 hours: Dark Red, 5 hours: Black, 9 hours: Dark Green. Gene Y: 1 hour: Black, 3 hours: Red, 5 hours: Black, 9 hours: Dark Green. Gene Z: 1 hour: Black, 3 hours: Black, 5 hours: Dark Red, 9 hours: Dark red.
- Gene X and Gene Y transcribed similarly. They both increased in the first 3 hours, then came back down to about a 1:1 ratio, then reduced transcription to 0.15-0.05.
- The spots would be yellow at the first time point because they have both the red and green dyes, they have not had a chance to transcribe based on oxygen or not yet. The yellow comes from the mix of red and green dyes because of the 1:1 ratio of each gene. The biological reason that most spots resulted in being yellow would be that the same gene is transcribed whether or not oxygen is present.
- Over the course of the experiment, the TEF4 was repressed. This could have happened due to the lack of glucose, which may be necessary for the transcription of this gene.
- TCA cycles would be induced if glucose is running out because the genes in these cycles help to preserve the glucose that is remaining.
- A mechanism that the genome could use to ensure that genes for enzymes in a common pathway are induced simultaneously is by using the guilt by association mechanism. This is because if one known gene is repressed or induced a certain way, then the other genes that are related will also be repressed or induced.
- I would expect the glucose-repressed genes to be labelled bright red in the later times of this experiment, since they are no longer repressed by glucose or TUP1.
- In the later times of this experiment, I would expect the spots to be bright red, since the yap1 gene is over expressed.
- Using the microarray data, I could truly figure out that I had truly deleted TUP1 or over expressed yap1 by seeing absolutely no green or yellow spots, they would all be bright red.
Acknowledgements
I worked with my homework partner, John Lopez, on this assignment. We met in person and spoke over text about how to answer the questions.
While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.
Mbalducc (talk) 14:56, 9 October 2017 (PDT)
References
LMU BioDB 2017. (2017). Week 6. Retrieved October 6, 2017, from https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_6
SGD. (2017). TEF4 / YKL081W Overview. Retrieved October 9, 2017 from https://www.yeastgenome.org/locus/S000001564
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